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Combining Non-reducing SDS-PAGE Analysis and Chemical Crosslinking to Detect Multimeric Complexes Stabilized by Disulfide Linkages in Mammalian Cells in Culture
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Dissecting Bonding Interactions in Cysteine Dimers.

Santiago Gómez1, Sara Gómez2, Jorge David3

  • 1Instituto de Química, Universidad de Antioquia UdeA, Calle 70 No. 52-21, Medellín 050010, Colombia.

Molecules (Basel, Switzerland)
|December 23, 2022
PubMed
Summary
This summary is machine-generated.

This study explores cysteine dimer formation in water, identifying 746 unique structures stabilized by diverse non-covalent interactions. Many cysteine dimer configurations are stable enough for experimental detection under room conditions.

Keywords:
NBONCIQTAIMcysteine dimershydrogen bondingnon-covalent interactionssalt bridgesstochastic optimization

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Area of Science:

  • Computational Chemistry
  • Biochemistry
  • Molecular Interactions

Background:

  • Cysteine is a key amino acid involved in protein structure and function.
  • Understanding cysteine dimer formation is crucial for various biological processes.

Purpose of the Study:

  • To explore the potential energy surfaces for cysteine dimer formation in aqueous environments.
  • To characterize the diverse non-covalent interactions stabilizing these dimers.

Main Methods:

  • Simulated annealing search for candidate structures.
  • Optimization and characterization using Natural Bond Orbitals (NBO), Quantum Theory of Atoms in Molecules (QTAIM), and Non-Covalent Interactions (NCI) analyses.
  • Continuum model to represent aqueous environments.

Main Results:

  • Identified 746 structurally distinct cysteine dimers.
  • Characterized 80 types of intermolecular contacts and 2894 non-covalent interactions.
  • Observed a wide range of interactions including hydrogen bonds, salt bridges, and dihydrogen bonds.
  • Found complex distributions in interaction strengths, distances, and stabilities.

Conclusions:

  • Most identified cysteine dimer structures are suitable for experimental detection at room conditions.
  • The study provides a comprehensive map of cysteine dimer interactions in solution.